Motivation: It would be very useful to have a script that can take many runs and create a dashboard for evaluating and comparing their quality/coverage.
It might:
- Generate a spreadsheet/table with summary statistics, like the number of reads/bases and the %mapping.
– Show thumbnail coverage graphs across genomes
- Display the
UN evidence concerning how much of the genome had enough coverage for calling mutations in each sample.
- etc.
Implementation: Most likely as Python/R scripts that generate HTML output. They can parse the summary.json files for statistics and use breseq BAM2COV to generate files to generate input files for graphing, for example.
Motivation: It would be very useful to have a script that can take many runs and create a dashboard for evaluating and comparing their quality/coverage.
It might:
– Show thumbnail coverage graphs across genomes
UNevidence concerning how much of the genome had enough coverage for calling mutations in each sample.Implementation: Most likely as Python/R scripts that generate HTML output. They can parse the
summary.jsonfiles for statistics and usebreseq BAM2COVto generate files to generate input files for graphing, for example.